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milaboratory / mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
https://mixcr.com
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picocli.CommandLine$ExecutionException: Error while running command refineTagsAndSort java.lang.IllegalStateException: Check failed. #1450

Closed malonzm1 closed 12 months ago

malonzm1 commented 1 year ago

Hi,

Any ideas what could cause this error picocli.CommandLine$ExecutionException: Error while running command refineTagsAndSort java.lang.IllegalStateException: Check failed.?

mixcr2_GSE125527_1.txt

The command used was: 'mixcr -Xmx1000g analyze 10x-sc-xcr-vdj -s hsa --rna --threads 4 --force-overwrite %s %s %s/%s'%(infile1,infile2,outdir,srr).

Thanks and good day.

dbolotin commented 1 year ago

Hi! Thanks for reporting! We isolated the problem and will fix it today. It will be published with the new release next week. We will post a pre-release version here. For this rare situation to emerge your data most probably should consist exclusively from some unusual sequence: very short or consisting from only one nucleotide, like AAAAAAA....

malonzm1 commented 1 year ago

Thanks!

mizraelson commented 12 months ago

The issue has been resolved in the latest develop version.